Locus 5667

Sequence ID 3R_DroMel_CAF1
Location 14,890,785 – 14,890,917
Length 132
Max. P 0.983944
window9262 window9263 window9264

overview

Window 2

Location 14,890,785 – 14,890,884
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 97.98
Mean single sequence MFE -30.63
Consensus MFE -29.59
Energy contribution -29.70
Covariance contribution 0.11
Combinations/Pair 1.04
Mean z-score -3.01
Structure conservation index 0.97
SVM decision value 1.96
SVM RNA-class probability 0.983944
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14890785 99 + 27905053
GCUUUUGAAUGGAAUUUAACCCAGUUUGCUUUCUUCUUUCUCGCUGGCUGGCAGAUAGCAGAUAACUGCUGCUAGCCGGCUUGUUGUCUUCAUUUCUAC
......(((((((...((((..((....))............((((((((((((.(((.......)))))))))))))))..))))..))))))).... ( -28.80)
>DroSec_CAF1 18248 99 + 1
GCUUUUGAAUGGAAUUUAACCCAAUUUGCUUUCUUCUUUCUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUAC
.....(((((((........)))...................((((((..((((.((((.....))))))))..))))))........))))....... ( -31.20)
>DroSim_CAF1 18137 99 + 1
GCUUUUGAAUGGAAUUUAACCCAGUUUGCUUUCUUCUUUCUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUAC
......(((((((...((((..((....))............((((((..((((.((((.....))))))))..))))))..))))..))))))).... ( -31.90)
>consensus
GCUUUUGAAUGGAAUUUAACCCAGUUUGCUUUCUUCUUUCUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUAC
.....(((((((........)))...................((((((((((((.((((.....))))))))))))))))........))))....... (-29.59 = -29.70 +   0.11)

alignment

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secondary structure

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dotplot

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Window 3

Location 14,890,824 – 14,890,917
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 97.85
Mean single sequence MFE -35.01
Consensus MFE -33.05
Energy contribution -33.50
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -3.15
Structure conservation index 0.94
SVM decision value 1.83
SVM RNA-class probability 0.979210
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14890824 93 + 27905053
CUCGCUGGCUGGCAGAUAGCAGAUAACUGCUGCUAGCCGGCUUGUUGUCUUCAUUUCUACCACGACAACUGGCUUUUCAGUUUUGCUUUUGGG
(((((((((((((((.(((.......)))))))))))))))..((((((..............)))))).(((...........)))...))) ( -31.44)
>DroSec_CAF1 18287 93 + 1
CUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUACCGCGACAACUGGCUUUUCAGUUUUGCUUUUGGG
(((((((((..((((.((((.....))))))))..))))))....................((((.((((((....))))))))))....))) ( -36.80)
>DroSim_CAF1 18176 93 + 1
CUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUACCGCGACAACUGGCUUUUCAGUUUUGCUUUUGGG
(((((((((..((((.((((.....))))))))..))))))....................((((.((((((....))))))))))....))) ( -36.80)
>consensus
CUCGCUGGCUGGCAGAUAGCAGAUAGCUGCUGCUGGCCGGCUUGUUGUCUUCAUUUCUACCGCGACAACUGGCUUUUCAGUUUUGCUUUUGGG
(((((((((((((((.((((.....))))))))))))))))....................((((.((((((....))))))))))....))) (-33.05 = -33.50 +   0.45)

alignment

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secondary structure

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dotplot

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Window 4

Location 14,890,824 – 14,890,917
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 97.85
Mean single sequence MFE -26.87
Consensus MFE -25.92
Energy contribution -25.70
Covariance contribution -0.22
Combinations/Pair 1.05
Mean z-score -2.09
Structure conservation index 0.96
SVM decision value 0.98
SVM RNA-class probability 0.893421
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14890824 93 - 27905053
CCCAAAAGCAAAACUGAAAAGCCAGUUGUCGUGGUAGAAAUGAAGACAACAAGCCGGCUAGCAGCAGUUAUCUGCUAUCUGCCAGCCAGCGAG
.......((...........((..((((((....((....))..))))))..)).((((.(((((((....))))....))).)))).))... ( -27.20)
>DroSec_CAF1 18287 93 - 1
CCCAAAAGCAAAACUGAAAAGCCAGUUGUCGCGGUAGAAAUGAAGACAACAAGCCGGCCAGCAGCAGCUAUCUGCUAUCUGCCAGCCAGCGAG
.......((...........((..((((((....((....))..))))))..)).(((..((((.(((.....)))..))))..))).))... ( -26.70)
>DroSim_CAF1 18176 93 - 1
CCCAAAAGCAAAACUGAAAAGCCAGUUGUCGCGGUAGAAAUGAAGACAACAAGCCGGCCAGCAGCAGCUAUCUGCUAUCUGCCAGCCAGCGAG
.......((...........((..((((((....((....))..))))))..)).(((..((((.(((.....)))..))))..))).))... ( -26.70)
>consensus
CCCAAAAGCAAAACUGAAAAGCCAGUUGUCGCGGUAGAAAUGAAGACAACAAGCCGGCCAGCAGCAGCUAUCUGCUAUCUGCCAGCCAGCGAG
.......((...........((..((((((....((....))..))))))..)).(((..((((.(((.....)))..))))..))).))... (-25.92 = -25.70 +  -0.22)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:13 2006